Comparative Genome and Transcriptome Study of the Gene Expression Difference Between Pathogenic and Environmental Strains of Prototheca zopfii

Isobaric tag for relative and absolute quantitation-based comparative proteomic analysis of human pathogenic Prototheca zopfii genotype 2 and environmental genotype 1 strains

(2018) Yuan-zhi Liu et al.   JOURNAL OF MICROBIOLOGY IMMUNOLOGY AND INFECTION

Genome sequencing of Prototheca zopfii genotypes 1 and 2 provides evidence of a severe reduction in organellar genomes

(2018) Marco Severgnini et al.   Scientific Reports

Molecular Characterization of Prototheca strains isolated in China revealed the first cases of protothecosis associated with Prototheca zopfii genotype 1

(2017) Noriyuki Hirose et al.   MEDICAL MYCOLOGY

Down-regulation of malate synthase in Mycobacterium tuberculosis H37Ra leads to reduced stress tolerance, persistence and survival in macrophages

(2017) Kumar Sachin Singh et al.   TUBERCULOSIS

Prototheca zopfii Induced Ultrastructural Features Associated with Apoptosis in Bovine Mammary Epithelial Cells

(2017) Muhammad Shahid et al.   Frontiers in Cellular and Infection Microbiology

Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown

(2016) Mihaela Pertea et al.   Nature Protocols

Effect of l-Arginine in One Patient with Peroxisome Biogenesis Disorder due to PEX12 Deficiency

(2016) Arthur Sorlin et al.   NEUROPEDIATRICS

One chromosome, one contig: complete microbial genomes from long-read sequencing and assembly

(2015) Sergey Koren et al.   CURRENT OPINION IN MICROBIOLOGY

Biofilm formation by pathogenicProtothecaalgae

(2015) J. Kwiecinski   LETTERS IN APPLIED MICROBIOLOGY

StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

(2015) Mihaela Pertea et al.   NATURE BIOTECHNOLOGY

Assembling large genomes with single-molecule sequencing and locality-sensitive hashing

(2015) Konstantin Berlin et al.   NATURE BIOTECHNOLOGY

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

Well-known surface and extracellular antigens of pathogenic microorganisms among the immunodominant proteins of the infectious microalgae Prototheca zopfii

(2015) Alexandra Irrgang et al.   Frontiers in Cellular and Infection Microbiology

The Pathogen-Host Interactions database (PHI-base): additions and future developments

(2014) Martin Urban et al.   NUCLEIC ACIDS RESEARCH

A Lack of Parasitic Reduction in the Obligate Parasitic Green Alga Helicosporidium

(2014) Jean-François Pombert et al.   PLoS Genetics

Keratin Degradation by Dermatophytes Relies on Cysteine Dioxygenase and a Sulfite Efflux Pump

(2013) Maria Grumbt et al.   JOURNAL OF INVESTIGATIVE DERMATOLOGY

The Transporter Classification Database

(2013) Milton H. Saier et al.   NUCLEIC ACIDS RESEARCH

Immunoproteomics based identification of thioredoxin reductase GliT and novel Aspergillus fumigatus antigens for serologic diagnosis of invasive aspergillosis

(2012) Li-ning Shi et al.   BMC MICROBIOLOGY

Protothecosis: report of a case with 20-year follow-up, and review of previously published cases

(2012) John R. Todd et al.   MEDICAL MYCOLOGY

DNA methylome analysis using short bisulfite sequencing data

(2012) Felix Krueger et al.   NATURE METHODS

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

UniProt Knowledgebase: a hub of integrated protein data

(2011) M. Magrane et al.   Database-The Journal of Biological Databases and Curation

An unusual case of granulomatous lymphadenitis due to Prototheca zopfii var. portoricensis in an immunocompetent man in China

(2010) Qiangqiang Zhang et al.   INTERNATIONAL JOURNAL OF INFECTIOUS DISEASES

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Major roles of isocitrate lyase and malate synthase in bacterial and fungal pathogenesis

(2009) M. F. Dunn et al.   MICROBIOLOGY-SGM

BreakDancer: an algorithm for high-resolution mapping of genomic structural variation

(2009) Ken Chen et al.   NATURE METHODS

Using native and syntenically mapped cDNA alignments to improve de novo gene finding

(2008) Mario Stanke et al.   BIOINFORMATICS

Comparative study of the activity and kinetic properties of malate dehydrogenase and pyruvate decarboxylase from Candida albicans, Malassezia pachydermatis, and Saccharomyces cerevisiae

(2008) Adam Tylicki et al.   CANADIAN JOURNAL OF MICROBIOLOGY

Protothecosis after liver transplantation

(2008) Masashi Narita et al.   LIVER TRANSPLANTATION

Secreted Proteases from Dermatophytes

(2008) Michel Monod   MYCOPATHOLOGIA

The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics

(2008) B. L. Cantarel et al.   NUCLEIC ACIDS RESEARCH

Prototheca zopfii genotypes isolated from cow barns and bovine mastitis in Japan

(2008) Takafumi Osumi et al.   VETERINARY MICROBIOLOGY